ERISdb: a Database of Plant Splice Sites

General
Orthologs
EST
PPT, BS, UA-tract
cis-regulatory elements

Sequence

atgc intronic sequence ATGC exonic sequence

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA

Basic information

species	Arabidopsis thaliana
transcript	AT1G07110.1
intron #	22
splice site	3'
intron type	U2

Orthologous splice sites

atgc intronic sequence ATGC exonic sequence

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: LOC_Os03g18310.1 (Oryza sativa), 3'ss of exon 21

gtaaaatctgaattagaaaatacgagactat-cttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataat-aacatattttggatgtttcaa--cagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
                       ||||| |   || | |   |  | |  |        ||||   | ||   | |     ||    |  | | |||   |   |  |||     ||||| |||||||| || ||||| |||||||| ||||| ||| ||||||| ||||||||| | |||||||||||||||  | |  |  | ||       |   
---------------------gtgagacaacgttttgcattttatatcactgctaccctagagcaccatgcgcgtattttgcatttttgctcatcatgactgaaaatttttgctccagATACCACTTCATACAATAATTGAGATACAAATGGGTGTTGCTGGTGTTCAAGAGAAAAGATACAAACTCATGGACGCAGTGAACTCCACAGCAGGGATTT

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 20

gtaaaatctgaattaga--aaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
       || ||  | |    |    | || | | ||||  |  |    | |  | |   |   ||| |||  |              ||| || |          ||| |  ||||| || || || || ||||| |||||||| ||||| ||| ||||||| ||||||||||| ||||||||||||||   ||| ||  | ||           
-------cttaaacaaatttgacttaacacaaacatagatgggcttgtatttctgatcagaagtagtattgattatttttgctgtggctaaaaatac---------gttcctgcagATACCTCTACATACAATAATTGAGATACAAATGGGTGTTGCTGGTGTTCAAGAGAAACGGTACAAACTCATGGATGCAATCCATCCCACAGCGGGGTTGT

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 21

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataataacatattttggatgtttcaa--cagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACA-ACTATTACCACAA
                                       |||    |  |   |||||      |||||     | || | |    | |    ||  | ||  ||||   |   |||||||||| ||||| ||||| |||||||| ||||| ||  | |||||| |||||||  | ||||||||||||||||||||  | ||| |  |  | |    
-------------------------------------gtgatgatacatttgactttcctct--tcttgatcaaatgcgatatgtctgagctaatgatgtgattgttctcatgtagATGCCACTACACACCATAATCGAGATACAAATGGGCGTCACGGGTGTGGAAGAGAAGAGGTACAAACTCATGGACTGAATGAATACATAAAAGCAGCTGG-

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA14G37520.1 (Glycine max), 3'ss of exon 33

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagcttt-cagagagtcttggctgcaagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
          ||   ||||||  |||  |  |    | | |||  |  | | | ||| | |  | || ||  |    || | | |  ||||   |   ||||    |||  ||||||||| || || || ||||||||||||||  |||||||| |||||||  |||||||| | |||||||| |||||||||| | ||   |     |  |  |
--------caaaaaggaaaatctgaggttcacc---atccattttgtgaaacgttttactgtaaatcatgaatttgcgcaagatatctaatgtgag--tttgctcattt--acagATGCCCCTCCATACGATAATAGAGATACAATTGGGAGTTACTGGTGTTGAAGAGAAAAGATACAAACTAATGGACTGAAATGAACTGAAGGGAAAGAATA

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 24

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctg-caagccacacacataataacat-attttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA-
            ||      | |   |   | | ||   ||   |   || | ||||    || |  ||      | ||     | ||  |||| | |  || |   ||||  ||| | || ||||| || || || |||||||||||||||||  | ||||| ||||||||| | || ||||| |||||||||| | ||   |  |  |   |   
---------cttttgtggggttc---atcgtgtcagttggag-aaatcatga-cttttgatgaatgatgatgaatatgctgaggatatc-taacgtgagatttgtcatttc--caggTTCCTCTTCATACGATTATTGAGATACAGATGGGAGTCACGGGTGTCCAAGAGAAAAGATATAAACTAATGGACTGAAATGAATTGAAGAAAAGTTCTCT

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 23

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctg-caagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
            || |        | | | ||    |      ||  | |   ||||  | || |  ||      | ||   | | ||  ||||||    |   || ||   ||| | || ||||| || || || |||||||||||||||||  | ||||| ||||||||| | || ||||| |||||||||| | ||   |  |  |      
---------atttttgtggggttcacattgtc----agttggagaaatcttcacttttggtgaatgatgatgaatatgctgaagatatc-taacatgagatttgtgatttc-cagGTTCCTCTTCATACGATTATTGAGATACAGATGGGAGTCACGGGTGTCCAAGAGAAAAGATATAAACTAATGGACTGAAATGAATTGAAGAAAAGTTTCT

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 29

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctg-caagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
            || |        | | | ||    |      ||  | |   ||||  | || |  ||      | |    | | ||  |||| |    |   || ||   ||| | || ||||| || || || |||||||||||||||||  | ||||| ||||||||| | || ||||| |||||||||                      
---------atttttgtggggttcacattgtc----agttggagaaatcttcacttttggtgaatgatgatgaatatgttgaagatatc-taacgtgagatttgtgatttc-cagGTTCCTCTTCATACGATTATTGAGATACAGATGGGAGTCACGGGTGTCCAAGAGAAAAGATATAAACTAATGGACTGA----------------------

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 22

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
 ||  |  | | ||    ||||     || |  ||| |  |   | | ||       || ||    |||||  ||||  |||| |  |  ||| || |  |  |   |   ||| | || ||||| ||||||||||||||||| ||||||||| ||||||| ||||||||| | ||||| |||||||||||| |||     ||     |     
ttaccacatcattttatgaataaattccttttctaggagaagaaaacaat------ccaaag----ttggc--caagttacaccctgacaaacttaat--gattcacttttcagGTACCGCTTCATACTATAATAGAGATACAAATGGGAGTTACTGGTGTCCAAGAGAAAAGATACAAGCTCATGGACTGACTTCGCTTCACAGAATCTTTTG

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: PP1S242_66V6.1 (Physcomitrella patens), 3'ss of exon 23

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataa-taacatattttggat---gtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
            ||     |||    | | | |  |     ||| | | |     ||||    || |    |   |   ||| |||||| ||||  |||    ||    |||  |||||||||||| || ||||| || ||||| || ||||||||| ||||||| || ||||| || ||||| ||||||||    |  || |               
-----------tttccttgatatcgaattgtttctgc-tatttgcggtct---tgttcacgccgtttgcattttca---acatacataactaactcattcacaattcgatttgcacagATGCCACTGCATACTATTATTGAGATTCAAATGGGAGTTACTGGTGTTCAGGAGAAGCGATACAAGCTCATGGA---GACCCAGA---------------

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: EFJ11749 (Selaginella moellendorffii), 3'ss of exon 17

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
                                   ||  || ||   | ||     |||    |   ||||  ||||   |     |||     |  ||    ||| |   |||||||| ||||||||||| || ||||| |||||||||||  | ||||| |||||||| || ||||| ||| |  |                          
---------------------------------gtgagtgagtggaatttatctagtcaatatgatctggc--caagttccttctttaagcttctgcttcctttgtgt-gccagATGCCTCTTCACACTATCATTGAGATCCAGATGGGAGTCGCAGGTGTACAAGAGAAGCGATACAAGCTCTTATAA-------------------------

upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: EFJ22544 (Selaginella moellendorffii), 3'ss of exon 17

gtaaaatctgaattagaaaatacgagactatcttagaacgattgagctataagctttcagagagtcttggctgcaagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA
                                   ||  || ||   | ||     |||    |   ||||  ||||   |     |||     |  ||    ||| |   |||||||| ||||||||||| || ||||| |||||||||||  | ||||| |||||||| || ||||| ||| |  |                          
---------------------------------gtgagtgagtggaatttatctagtcaatatgatctggc--caagttccttctttaagcttctgcttcctttgtgt-gccagATGCCTCTTCACACTATCATTGAGATCCAGATGGGAGTCCCAGGTGTACAAGAGAAGCGATACAAGCTCTTATAA-------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments

ATGC    EST sequence
ATGC    genomic sequence (exon)
ATGC    genomic sequence (truncated intron)

EST: gi|124753635|gb|EH843765.1|EH843765

EST:     TGTATGCATATTTTGCGGATCGTCCCCTCAAAGAAATACCCCAAATCGAG                         ATGCCACTTCACACTATAATAGAGA
genomic: TGTATGCATATTTTGCGGATCGTCCCCTCAAAGAAATACCCCAAATCGAGgtaaaatctg ... gtttcaacagATGCCACTTCACACTATAATAGAGA

EST: gi|116416224|gb|EG458816.1|EG458816

EST:     TGTATGCATATTTTGCGGATCGTCCCCTCAAAGAAATACCCCAAATCGAG                         ATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAA
genomic: TGTATGCATATTTTGCGGATCGTCCCCTCAAAGAAATACCCCAAATCGAGgtaaaatctg ... gtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAA

EST: gi|125201580|gb|EL216534.1|EL216534

EST:     CAAAGAGATACCCCAAATCGAG                         ATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAA
genomic: CAAAGAAATACCCCAAATCGAGgtaaaatctg ... gtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAA

atgc intronic sequence ATGC exonic sequence

Intronic sequence truncated to 55 bases.

gagagtcttggctgcaagccacacacataataacatattttggatgtttcaacagATGCCACTTCACACTATAATAGAGATACAGATGGGAGTTTCTGGTGTGCAAGAGAAACGCTACAAACTCATGGACTGAATTCAAACAACTATTACCACAA

                           taataac  putative branch site (score: 1)
                        acataataacatattt  TA-rich tract

Putative cis-regulatory sequences

atgc	intron	ATGC	exonic elements by Pertea et al.
ATGC	exon	atgc	putative intronic elements
		ATGC	putative exonic elements identified for retained introns